maigesDEcluster-class: maigesDEcluster class, store results of differential gene...

In maigesPack: Functions to handle cDNA microarray data, including several methods of data analysis

Description

This class extends the class maigesDE to store results from differential expression analysis. It is produced in the same way as the latter, but has one more slot containing the W values. This is useful to do cluster analysis. Together the slots of the maigesDE class, it has one more given in Slots section.

Details

Objects of this class are produced in the same way as maigesDE. The addition of the slot W turn possible to do cluster analysis in this class of objects using the functions hierMde, somMde and kmeansMde, selecting genes according to the results of gene expression analysis.

Slots

W:

numeric matrix containing the W values for the genes and samples used in the analysis.

Methods

boxplot

signature(x = 'maigesDEcluster'): boxplot method for maigesDEcluster class. Display boxplots of one gene previously defined.

plot

signature(x = 'maigesDEcluster'): plot method for maigesDEcluster class. Display MA plots.

print

signature(x = 'maigesDEcluster'): print method for maigesDEcluster class.

show

signature(x = 'maigesDEcluster'): show method for maigesDEcluster class.

summary

signature(x = 'maigesDEcluster'): summary method for maigesDEcluster class.

Author(s)

Gustavo H. Esteves <[e-mail]>

See Also

deGenes2by2Ttest, deGenes2by2Wilcox, deGenes2by2BootT, deGenesANOVA, hierMde, somMde, kmeansMde.

maigesPack documentation built on Nov. 8, 2020, 6:23 p.m.